BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0012.0054.p (534 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 195 9e-51 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 177 3e-45 gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 142 7e-35 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 142 8e-35 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 101 2e-22 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 195 bits (495), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 103/229 (44%), Positives = 137/229 (59%), Gaps = 3/229 (1%) Query: 6 CTCXRGVAMNEKGLDGGHPLYLSGALLDGWYAPSLRGDVNTGIGRWSEAEVVQFLKTGRN 65 C RGV M EK L +LSG ++DG+ A +LRGD G+G WSEA++V FLKTGRN Sbjct: 198 CHTPRGVGMQEKALSNDSSQFLSGGVIDGYLANNLRGDGRDGLGNWSEADIVAFLKTGRN 257 Query: 66 QHAVVFGSMADAFNNSTQFMSDQDLQAIARYLKSLPGDPKRDGEP-WKYDNGTTTALAAQ 124 H+ FG MAD NSTQ+M+++DL A+A+YLKSL P +DG P YD+ T AL Sbjct: 258 SHSAAFGGMADVVANSTQYMTEEDLSAMAKYLKSL--KPVKDGTPALAYDDKTHQALRKG 315 Query: 125 RLDSPAARTYMAKCAACHAVDGRGRAPWIPPLAGAVSSLAKEDASAINVTLNGSVRVVAD 184 SP A ++ CAACH G+G P LA + + A+ AS I + L G+ Sbjct: 316 SDQSPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENPASLIRIVLEGAEMPWTH 375 Query: 185 GVPDSYRMPPFRSQLSDAEIADVLSFIRSSWGNHGGAVKVDDVKTLRDR 233 P + MP F S+LSD E+A+V++FIRSSWGN +V DV +R + Sbjct: 376 KAPTQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSVSASDVAKVRKQ 424 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 177 bits (448), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 97/236 (41%), Positives = 133/236 (56%), Gaps = 6/236 (2%) Query: 6 CTCXRGVAMNEKGL--DGGHPLYLSGA-LLDGWYAPSLRGDVNTGIGRWSEAEVVQFLKT 62 C R V M EK L DGG L+LSG ++DGW PSLR + GI WS+A++V+FL+T Sbjct: 246 CHSPRAVTMQEKALKEDGGR-LFLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRT 304 Query: 63 GRNQHAVVFGSMADAFNNSTQFMSDQDLQAIARYLKSLPGDPKRDGEPWKYDNGTTTALA 122 GRNQ+ FG+M D +S Q+MSD DL A+ARYL SLP P++ P++YD+ T A Sbjct: 305 GRNQYTASFGAMNDVIEDSMQYMSDADLNAMARYLLSLP--PRQQAAPYRYDSATAQAAY 362 Query: 123 AQRLDSPAARTYMAKCAACHAVDGRGRAPWIPPLAGAVSSLAKEDASAINVTLNGSVRVV 182 R D P AR Y+ +CAACH +G G P LAG + SAI + L G + Sbjct: 363 DGRPDGPGARIYLDRCAACHRSNGTGYGKAFPALAGNPVLQTSDATSAIRIILQGGRQPS 422 Query: 183 ADGVPDSYRMPPFRSQLSDAEIADVLSFIRSSWGNHGGAVKVDDVKTLRDRTNPAS 238 M P+ L D ++A+V S+I+++WGN GG +V +R P + Sbjct: 423 TASATAGLVMAPYAQLLDDQQVAEVTSYIQTAWGNRGGTTTAAEVAKVRKTAVPVA 478 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 142 bits (358), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 80/212 (37%), Positives = 110/212 (51%), Gaps = 7/212 (3%) Query: 23 HPLYLSGALLDG--WYAPSLRGDVNTGIGRWSEAEVVQFLKTGRNQHAVVFGSMADAFNN 80 PL L+G ++ WYAP L G + G+ WS A++ LKTG + HAV G M++ Sbjct: 221 EPLALAGGVIPALQWYAPPLHGGAD-GLQDWSTADIAALLKTGVSPHAVTLGPMSEIVGR 279 Query: 81 STQFMSDQDLQAIARYLKSLPGDPKRDGEPWKYDNGTTTALAAQRLDSPAARTYMAKCAA 140 S Q+++D D+ A+A YLKSLP D + A+R+ + Y C Sbjct: 280 SLQYLNDADVSAMAVYLKSLPASAADDAA----RPASVEPAEAERIMKQGKQLYGTLCVD 335 Query: 141 CHAVDGRGRAPWIPPLAGAVSSLAKEDASAINVTLNGSVRVVADGVPDSYRMPPFRSQLS 200 CH G+G AP PPLAG + A+A+ LNG G P + MPPF QLS Sbjct: 336 CHGGKGQGSAPDYPPLAGNRAIAGPHPANAVRAVLNGGFPPSTAGNPYPFGMPPFGPQLS 395 Query: 201 DAEIADVLSFIRSSWGNHGGAVKVDDVKTLRD 232 D E+A V+S++R+SWGN GG V +V R Sbjct: 396 DQEVAAVVSYVRNSWGNQGGLVSAAEVNRYRS 427 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 142 bits (358), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 90/229 (39%), Positives = 120/229 (52%), Gaps = 9/229 (3%) Query: 6 CTCXRGVAMNEKGLDGGHPLYLSGALLDGWYAPSLRGDVNTGIGRWSEAEVVQFLKTGRN 65 C RGVAMNEK D +LSG L+GW PSLRG + WS ++V +L+TGRN Sbjct: 194 CHTPRGVAMNEKASDSSQAQFLSGGDLNGWAVPSLRG-----MPHWSAQDIVDYLQTGRN 248 Query: 66 QHAVVFGSMADAFNNSTQFMSDQDLQAIARYLKSL-PGDPKRDGE--PWKYDNGTTTALA 122 + A V G M+ +ST + +DLQA+A YLK+L P G P D T + L Sbjct: 249 KTASVAGEMSLVVEHSTSHLKREDLQAMAAYLKTLSPVASSGSGRVIPQGVD-ATVSKLT 307 Query: 123 AQRLDSPAARTYMAKCAACHAVDGRGRAPWIPPLAGAVSSLAKEDASAINVTLNGSVRVV 182 A + + R Y+ CAACH V GRG P L GA A+ ++ ++V L G+ Sbjct: 308 AAKDLTLGERLYLDNCAACHFVTGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPS 367 Query: 183 ADGVPDSYRMPPFRSQLSDAEIADVLSFIRSSWGNHGGAVKVDDVKTLR 231 + P MP F +LSD E A + +F+R WGNH G V +V LR Sbjct: 368 TEKAPSILVMPGFAHRLSDEEAAALATFVRQGWGNHAGKVSEREVGKLR 416 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 101 bits (251), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/253 (32%), Positives = 125/253 (49%), Gaps = 41/253 (16%) Query: 6 CTCXRGVAMNEKGLDGGHPLYLSGALLDGWYAPSLRGDVNTGIGRWSEAEVVQFLKTGRN 65 C RG M EK L L+GA + WYAP++ + GIG WS+ ++V +L+TGR Sbjct: 215 CHTPRGWLMQEK-----PDLQLAGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRL 269 Query: 66 Q-HAVVFGSMADAFNNSTQFMSDQDLQAIARYLKSLP----GDPKRDGEPWKYDNGTT-T 119 + A GSMA+A +S ++++DL+AIA Y+K P GD + G ++D G Sbjct: 270 EGRAQAAGSMAEAITHSFSRLTEEDLRAIAVYIKDRPAIATGDAQGSGS--RFDQGKAGN 327 Query: 120 ALAAQR-----LDSP----AARTYMAKCAACHAVDGRGRAPWIPPLAGAVSSLAKEDASA 170 ALA R +SP AR + A CA+CH +G+G G SL + A+A Sbjct: 328 ALAQFRGRTLSAESPEEIRGARIFSASCASCHGYNGQGSR------DGYYPSLFRNSATA 381 Query: 171 INVTLNGSVRVVADGVPDSYR------MPPFRSQ------LSDAEIADVLSFIRSSWGNH 218 V N + + GV MPPF Q LS+A++A + +++ +G Sbjct: 382 -GVNANNLIATILYGVDRETEQGGHVFMPPFGDQPNALNKLSNADVAALSNYLLKYYGKP 440 Query: 219 GGAVKVDDVKTLR 231 VK +DV+ +R Sbjct: 441 AATVKAEDVEVIR 453 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.322 0.135 0.413 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,726,865 Number of extensions: 74653 Number of successful extensions: 252 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 244 Number of HSP's successfully gapped: 7 Length of query: 534 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 444 Effective length of database: 1,193,720 Effective search space: 530011680 Effective search space used: 530011680 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 133 (55.8 bits)